- Author:
- Shelley Fong <s.fong@auckland.ac.nz>
- Date:
- 2022-05-05 12:59:54+12:00
- Desc:
- submodules updated
- Permanent Source URI:
- https://staging.physiomeproject.org/workspace/705/rawfile/06090258b1d8e18036cfc017964254a6914e9b05/exposure/exposure_frontpage.rst
About this model
====================
This is a Functional Cell Unit for adenylyl cyclase metabolism in the cardiac cell.
This is a composite module, composed of several individual modules, and merged together in a modular fashion.
**INPUTS:**
- Ligands for beta-1 adrenergic and muscarinic receptors.
**OUTPUTS:**
- Change in molar amount of cyclic AMP.
Model status
=============
The current CellML implementation runs in OpenCOR.
Model overview
===================
All components are presented in `bond-graph` form.
Components are made by converting an existing kinetic model and translating into bond-graph form.
.. figure:: exposure/FCU_picture.png
:width: 40%
:align: center
:alt: Components of the model
Components of the model.
A description of the process to find bond-graph parameter is shown in the folder `parameter_finder <parameter_finder>`_, which relies on the:
1. stoichiometry of system
2. kinetic constants for forward/reverse reactions
- If not already, all reactions are made reversible by assigning a small value to the reverse direction.
3. `linear algebra script <https://models.physiomeproject.org/workspace/705/rawfile/9a5197806ac1691741ad8d2392127f91d77a8c24/parameter_finder/find_BG_parameters_composite.py>`_.
Here, this solve process is performed in Python.
Modular description
===================
Components
----------
CellML divides the mathematical model into distinct components, which are able to be re-used in other composite models.
These CellML components are:
- `beta-1 adrenergic receptor and Gs protein <https://models.physiomeproject.org/workspace/7dc>`_ (GPCR-:math:`{\beta}` 1AR)
- `muscarinic receptor and Gi Protein (GPCR-M2) <https://models.physiomeproject.org/workspace/7dd>`_ (M2)
- `cyclic AMP <https://models.physiomeproject.org/workspace/674>`_ (cAMP)
.. csv-table:: Origin of kinetic model components
:header: "Source", "Components"
:widths: 15, 30
"`Saucerman et al. <https://models.physiomeproject.org/exposure/9766d9bd0325c31e47a31b291e26ccad>`_", "GPCR-:math:`{\beta}` 1AR, cAMP"
"`Iancu et al. <https://models.physiomeproject.org/exposure/f67b68f901fc3986fcea0dcfceb503f9>`_", "GPCR-M2"
Each of these blocks is itself a CellML model, complete with bond-graph parameters appropriate for the isolated system.
